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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcaatttcatttgaccttttgacgtgttactttacctacttcattcggagAACTTGATTTTTGCTTGCCACTGAGCAATGGGTTAAGGTTCTCATTGCTTGTCTTTGTGTTAGCGAGTCAG

Basic information

species Zea mays
transcript GRMZM2G451327_T01
intron # 3
splice site 3'
intron type U2

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 4 RNA-Seq libraries.


Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 43

TCATATGATGGAGGCTTTGGTATGGTTCCTGGTTCTGAATCTCATGgtaagcaatt ... tcattcggagAACTTGATTTTTGCTTGCCACTGAGCAATGGGTTAAGGTTCTCATTGCTTGTCTTTGTGTTAGCGAGTCAG


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 142

TCATATGATGGAGGCTTTGGTATGGTTCCTGGTTCTGAATCTCATGgtaagcaatt ... tcattcggagAACTTGATTTTTGCTTGCCACTGAGCAATGGGTTAAGGTTCTCATTGCTTGTCTTTGTGTTAGCGAGTCAG


Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 181

TCATATGATGGAGGCTTTGGTATGGTTCCTGGTTCTGAATCTCATGgtaagcaatt ... tcattcggagAACTTGATTTTTGCTTGCCACTGAGCAATGGGTTAAGGTTCTCATTGCTTGTCTTTGTGTTAGCGAGTCAG


Block sizes: 47 (upstream exon), 48 (downstream exon)
Score: 56

TCATATGATGGAGGCTTTGGTATGGTTCCTGGTTCTGAATCTCATGgtaagcaatt ... tcattcggagAACTTGATTTTTGCTTGCCACTGAGCAATGGGTTAAGGTTCTCATTGCTTGTCTTTGTGTTAGCGAGTCAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaagcaatttcatttgaccttttgacgtgttactttacctacttcattcggagAACTTGATTTTTGCTTGCCACTGAGCAATGGGTTAAGGTTCTCATTGCTTGTCTTTGTGTTAGCGAGTCAG
                     ttttgac  putative branch site (score: 56)
                                       cctacttc  putative PPT
       aatttcattt  TA-rich tract